Illumina Protein Prep combines trusted Illumina chemistry, SOMAmer technology, and DRAGEN data analysis for a comprehensive, automated NGS-based proteomics solution.
Assay time
Hands-on time
Input quantity
Illumina Protein Prep is available for Early Access
Early access to our innovative solution is now available for plasma and serum samples with a 6K unique human protein panel (with limited technical support).
Illumina Protein Prep enables discovery and quantification of human proteins across more than 200 biological pathways using a SOMAmer-based proteomics assay with an NGS readout.
SOMAmer Reagents used in the Illumina Protein Prep assay are rigorously characterized by shape specificity and polyionic competition and orthogonally confirmed by methods such as mass spectroscopy and ELISA (enzyme-linked immunosorbent assay).
SOMAmer Reagents in Illumina Protein Prep provide femtomolar sensitivity with high reproducibility and a 10 log dynamic range.
The entire workflow is automated on a single platform, providing an end-to-end solution for processing 340 samples and 44 controls per week, with seamlessly integrated secondary analysis pipelines and comprehensive tertiary analysis solutions.
| Assay time | ~2.5 days |
|---|---|
| Automation capability | Liquid handling robots |
| Automation details | The Illumina Protein Prep assay is fully automated on the Illumina Protein Prep Automation System, a custom Tecan Fluent 780, with the required parts to completely automate the assay on deck |
| Content specifications | The assay targets 6000 unique human protein targets, with expansion to 9000 unique human protein targets in early 2025 |
| Description | Illumina Protein Prep is a next-generation sequencing-based proteomics solution for the analysis of major molecular targets such as receptors, kinases, growth factors, and hormones spanning secreted, intracellular, and extracellular proteins in humans. |
| Hands-on time | ~4 hr |
| Input quantity | 55 µL of human plasma or serum |
| Instruments | NovaSeq X System, NovaSeq 6000 System, NovaSeq X Plus System |
| Mechanism of action | Uses the SomaScan assay for aptamer-based protein capture followed by Illumina library prep |
| Method | NGS-based proteomics |
| Multiplexing | 96 reactions are run per batch on the Illumina Protein Prep Automation System; up to 192 reactions can be run on the NovaSeq X 10B flow cell and NovaSeq 6000 S4 flow cell |
| Sample type details | Compatible with human plasma or serum samples |
| Species category | Human |
| Technology | Sequencing |
| Variant class | Protein expression levels |
Illumina Protein Prep Automation System (Required one-time purchase. The assay must be automated using the Illumina Protein Prep Automation System. Contact your local Illumina Account Manager to learn more about our Illumina Protein Prep service partners).
Choose either the plasma or serum assay based on your preferred input sample type:
Illumina Protein Prep 6K Plasma, 96 reactions (Catalog no. 20104377),* or
Illumina Protein Prep 6K Serum, 96 reactions (Catalog no. 20104378)*
Choose one index plate per 96-reaction kit:
Illumina DNA/RNA UD Indexes, Tagmentation (96 indexes, 96 samples)
Set A (Catalog no. 20091654)
Set B (Catalog no. 20091656)
Set C (Catalog no. 20091658)
Set D (Catalog no. 20091660)
*Illumina Protein Prep is in early access. Please contact an Illumina specialist for more information.
Illumina Protein Prep enables sequence-ready libraries for the detection of 6000 unique human proteins for proteomic discovery and quantification applications, including biomarker discovery and population genetics studies.
Illumina Protein Prep 6K, Plasma (96 reaction)
Scalable and flexible high-throughput sequencing for a wide range of applications.
Advanced chemistry, optics, and informatics combine to deliver exceptional speed and data quality, outstanding throughput and scalability.
Easy-to-use cloud-based genomic run management and bioinformatics compute and storage environment for secure, high-performing sequencing operations.
Accurate, comprehensive, and efficient secondary analysis of next-generation sequencing (NGS) data. Integrated proteomic analysis powered by DRAGEN Protein Quantification delivers highly accurate results for deeper biological insights.
| Instrument | Recommended number of samples | Read length |
|---|---|---|
| NovaSeq 6000 System | 192 reactions per flow cell on S4 35c |
40M reads, 1 x 35 |
| NovaSeq X System | 192 reactions per flow cell on 10B 100c |
40M reads, 1 x 100 |
Explore the entire set of proteins in an organism, also known as the proteome, with next-generation sequencing.
Use multiomics profiling to multiply discovery power and better connect genotype to phenotype.
A dedicated support section is not currently available for this product
Human serum or plasma samples are used as input to the SomaScan assay, followed by Illumina library prep, automated on Illumina Protein Prep Automation System, and sequenced on a NovaSeq System.
Differential expression of three menopause-related genes was detected using microarray and NGS. Plasma samples from 85 healthy individuals showed higher protein levels in older females. Data were comparable between methods. Genes: FSH, HCG, and LH.
Unlike polyclonal antibodies, which can be variable in structure and performance, SOMAmer Reagents are based on binding kinetics, providing femtomolar sensitivity and excellent reproducibility, with a low median coefficient of variance (CV) under 10%.
SOMAmer Reagents (blue) contain a photocleavable linker and biotin. Bound to streptavidin beads, they capture specific proteins and tag with biotin (yellow). UV light breaks the linker, releasing SOMAmer-protein complexes, which are captured on new beads and eluted for quantification using NGS.
Following the SomaScan assay, SOMAmer Reagent abundances are converted to barcoded sequencing-ready libraries using a hybridization-based approach.
ILMN Protein Prep 6k Plasma, 96 Reactions
20104377
Library Prep Kit for Illumina Proteomics Assay – Plasma Sample type. LP kit enables 96 reactions(85 samples + 11 Controls)
ILMN Protein Prep 6k Serum, 96 Reactions
20104378
Library Prep Kit for Illumina Proteomics Assay – Serum Sample type. LP kit enables 96 reactions(85 samples + 11 Controls)
Illumina Protein Prep Automation System
20116818
This package supports customers who wants to automate their Illumina Protein Prep Assay. It includes a Tecan Fluent OEM automation system equipped to run Illumina Protein Prep Assay protocols, robotic accessories, and the control software to run the assay.
Illumina® DNA/RNA UD Indexes Set A, Tagmentation (96 Indexes, 96 Samples)
20091654
Illumina® DNA/RNA UD Indexes Set A, Tagmentation (96 Indexes, 96 Samples) Includes 96, 10 bp indexes sufficient for labeling 96 samples. Purchase library prep and enrichment reagents and probe panels separately.
List Price:
Discounts:
Illumina® DNA/RNA UD Indexes Set B, Tagmentation (96 Indexes, 96 Samples)
20091656
Illumina® DNA/RNA UD Indexes Set B, Tagmentation (96 Indexes, 96 Samples) Includes 96, 10 bp indexes sufficient for labeling 96 samples. Purchase library prep and enrichment reagents and probe panels separately.
List Price:
Discounts:
Illumina® DNA/RNA UD Indexes Set C, Tagmentation (96 Indexes, 96 Samples)
20091658
Illumina® DNA/RNA UD Indexes Set C, Tagmentation (96 Indexes, 96 Samples) Includes 96, 10 bp indexes sufficient for labeling 96 samples. Purchase library prep and enrichment reagents and probe panels separately.
List Price:
Discounts:
Illumina® DNA/RNA UD Indexes Set D, Tagmentation (96 Indexes, 96 Samples)
20091660
Illumina® DNA/RNA UD Indexes Set D, Tagmentation (96 Indexes, 96 Samples) Includes 96, 10 bp indexes sufficient for labeling 96 samples. Purchase library prep and enrichment reagents and probe panels separately.
List Price:
Discounts:
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SOMAmer technology (aptamer-based) is used for protein capture. See Protein capture using the SOMAScan assay in the Figures tab on this page.
Human plasma and serum samples.
The Illumina Protein Prep 6K assay detects more than 6000 unique human proteins with expansion to more than 9000 unique human proteins in early 2025. This panel can be used to detect proteins in major biological pathways, including those implicated in oncology, neurology, inflammation, and cardiology.
Secondary analysis generates a protein quantification file (ADAT) and QC report.
Advanced chemistry, optics, and informatics combine to deliver exceptional speed and data quality, outstanding throughput and scalability.
Reagent kits for the NovaSeq X Series include a reagent cartridge, buffer cartridge, flow cell, lyo insert, pre-load buffer, and library tube strip.
Order a NovaSeq 6000 System today. Speak to a representative for information on pricing, availability, and more.
Reagent kits for the NovaSeq 6000 System consisting of ready-to-use pre-filled reagent cartridges and flow cells.
A rapid, cost-effective workflow for accurate, unbiased detection of the protein-coding transcriptome with precise measurement of strand information.
A fast, integrated workflow for preparing libraries for use in a wide range of sequencing applications.
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